Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 116 of 425
Found at i:34519705 original size:29 final size:29
Alignment explanation
Indices: 34519672--34519774 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
34519662 CCTCCGAGCT
** *
34519672 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
* *
34519701 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
*
34519730 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
34519759 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
34519775 ATCTCATCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:34519714 original size:58 final size:57
Alignment explanation
Indices: 34519643--34519773 Score: 138
Period size: 58 Copynumber: 2.3 Consensus size: 57
34519633 AATTTAAGCC
** * * *
34519643 CGCACACACAGTGCC-ATACCCTCCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCTATA-CCTCC-AGCACGCACACCCAGTGCCATATATTTCCAGCA
* ** **
34519701 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCC-TATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
34519759 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
34519774 GATCTCATCA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 54 0.90
59 3 0.05
60 3 0.05
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (57 bp):
CGCACACTTAGTGCCTATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:34522832 original size:24 final size:24
Alignment explanation
Indices: 34522776--34522941 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
34522766 GAGGAAGTGA
34522776 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34522800 -AAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34522823 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34522847 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
34522870 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
34522894 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
34522918 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34522942 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 46 0.35
24 76 0.57
25 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34522845 original size:47 final size:46
Alignment explanation
Indices: 34522776--34522941 Score: 244
Period size: 47 Copynumber: 3.5 Consensus size: 46
34522766 GAGGAAGTGA
34522776 AAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTAT
34522822 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATC-AAAGGGCTTATGCCCCAGTTAT
* *
34522870 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-TCAAAGGGCTTATGCCCCAGTTA-T
*
34522918 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34522942 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
47 66 0.59
48 35 0.32
49 10 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTAT
Found at i:34522892 original size:71 final size:71
Alignment explanation
Indices: 34522776--34522942 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 71
34522766 GAGGAAGTGA
*
34522776 AAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
34522841 GTTATC
66 GTTATC
** *
34522847 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
34522912 GTTATT
66 GTTATC
*
34522918 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
34522943 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:34523168 original size:31 final size:31
Alignment explanation
Indices: 34523133--34523196 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34523123 CATTTACAGT
34523133 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
34523164 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34523195 AA
1 AA
34523197 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34525054 original size:40 final size:40
Alignment explanation
Indices: 34524999--34525256 Score: 337
Period size: 40 Copynumber: 6.5 Consensus size: 40
34524989 TGGATGATAA
* *
34524999 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-TAT
* *
34525039 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
34525079 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
34525119 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* *
34525159 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * * *
34525199 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGT-AGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* *
34525239 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34525257 TACTTGGCTT
Statistics
Matches: 199, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.08
40 182 0.91
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:34525212 original size:120 final size:120
Alignment explanation
Indices: 34524999--34525256 Score: 378
Period size: 120 Copynumber: 2.2 Consensus size: 120
34524989 TGGATGATAA
* *
34524999 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* * * *
34525064 TGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
66 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
*
34525119 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* *
34525182 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGTTATAT
64 GGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
* *
34525239 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34525257 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
119 15 0.12
120 108 0.86
121 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
Found at i:34532627 original size:43 final size:42
Alignment explanation
Indices: 34532560--34532717 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
34532550 AAGCTCATAG
** * * *
34532560 GATGCCAACATCCCAGATGTGGTCTTACATGTAATCAAATACC
1 GATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATA-C
*
34532603 GATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAC
1 GATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATAC
34532645 GATGCCAATGTCCCAGACGTGGTCTTA-ACGTAAATCATAAGT-C
1 GATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCA-AA-TAC
* * *
34532688 GATGCTAATATCCCAGACATGGTCTTACAC
1 GATGCCAATGTCCCAGACGTGGTCTTACAC
34532718 AAAAACACAT
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
41 4 0.04
42 31 0.31
43 60 0.61
44 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
GATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATAC
Found at i:34534939 original size:30 final size:31
Alignment explanation
Indices: 34534887--34534944 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
34534877 ACTAATACAT
34534887 AAAATAATTATATAATATATAACTATTACTG
1 AAAATAATTATATAATATATAACTATTACTG
*
34534918 AAAAT-ATTA-ATACATGTATAACTATTA
1 AAAATAATTATATA-ATATATAACTATTA
34534945 TTATAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 17 0.68
31 5 0.20
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAATAATTATATAATATATAACTATTACTG
Found at i:34543393 original size:22 final size:22
Alignment explanation
Indices: 34543365--34543408 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34543355 TTAATTAAAC
34543365 AAAGGCATGAAAATAAGCCATT
1 AAAGGCATGAAAATAAGCCATT
34543387 AAAGGCATGAAAATAAGCCATT
1 AAAGGCATGAAAATAAGCCATT
34543409 TTATGTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAGGCATGAAAATAAGCCATT
Found at i:34546416 original size:12 final size:12
Alignment explanation
Indices: 34546383--34546441 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
34546373 TATTGATGCA
34546383 TATATAA-A-AT
1 TATATAATATAT
34546393 TAT-TAATATAT
1 TATATAATATAT
*
34546404 TATATACTATAT
1 TATATAATATAT
34546416 TATATAATATAACAT
1 TATATAATAT---AT
34546431 TATATAATATA
1 TATATAATATA
34546442 GTAGGAGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 3 0.07
10 4 0.10
11 5 0.12
12 17 0.41
15 12 0.29
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATAATATAT
Found at i:34551269 original size:16 final size:16
Alignment explanation
Indices: 34551250--34551284 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
34551240 CAGGAACTTG
34551250 GTTATGTGAATGATGT
1 GTTATGTGAATGATGT
34551266 GTTATGTGAATGATGT
1 GTTATGTGAATGATGT
34551282 GTT
1 GTT
34551285 CATTAAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (16 bp):
GTTATGTGAATGATGT
Found at i:34552227 original size:2 final size:2
Alignment explanation
Indices: 34552220--34552250 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
34552210 TCATGACATG
34552220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34552251 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34553225 original size:22 final size:22
Alignment explanation
Indices: 34553182--34553244 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 22
34553172 TTACTTTAGC
* *
34553182 TAATTTTATTGTTATTGCAATT-
1 TAATTTT-TTTTTATTTCAATTA
*
34553204 TAATTTTGTTTTTATTTTAATTA
1 TAATTTT-TTTTTATTTCAATTA
34553227 CTAATTTTTCTTTTATTT
1 -TAATTTTT-TTTTATTT
34553245 GCTTCTGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 18 0.53
23 1 0.03
24 15 0.44
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TAATTTTTTTTTATTTCAATTA
Found at i:34556662 original size:29 final size:29
Alignment explanation
Indices: 34556568--34556640 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
34556558 GTGACGAGAT
34556568 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34556597 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34556626 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34556641 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34556736 original size:2 final size:2
Alignment explanation
Indices: 34556731--34556757 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34556721 GTGTGCGTAC
34556731 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34556758 CTCCGATCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34562896 original size:25 final size:25
Alignment explanation
Indices: 34562862--34562956 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
34562852 CTCTTTTAAT
* *
34562862 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
34562887 AACTGGGGCAAAGCCCATTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
34562912 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
34562937 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
34562957 AGCACTTCCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:34563354 original size:27 final size:27
Alignment explanation
Indices: 34563162--34563355 Score: 255
Period size: 27 Copynumber: 7.2 Consensus size: 27
34563152 GGGCAAAATG
* * * * *
34563162 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
34563189 GTAATTCTACCCTACAGGGGTACTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
34563216 GTAATTTTACCCTACAAGAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
34563243 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
34563270 GTAATTCTACCCTACAGGAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
34563297 GTAATTCTACCCTACA-GGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
34563323 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
34563350 ATAATT
1 GTAATT
34563356 TTGTAAATCG
Statistics
Matches: 144, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.17
27 120 0.83
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:34563379 original size:80 final size:81
Alignment explanation
Indices: 34563216--34563384 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 81
34563206 GGGTACTTCA
* * * * *
34563216 GTAATTTTACCCTACAAGAGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACC
1 GTAATTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACA
* ***
34563281 CTACAGGAGTATTTCG
66 ATACAGGAGTAAAACG
* *
34563297 GTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTTTGTA
1 GTAATTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAA--TTCTA
34563361 -AAT-CGAGG-GTAAAACG
64 CAATAC-AGGAGTAAAACG
34563377 GTAATTCT
1 GTAATTCT
34563385 GTAAATCAGG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
80 52 0.70
81 18 0.24
82 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGAGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACA
ATACAGGAGTAAAACG
Found at i:34563439 original size:82 final size:81
Alignment explanation
Indices: 34563340--34563519 Score: 186
Period size: 82 Copynumber: 2.2 Consensus size: 81
34563330 TACCCTACAG
* * * * **
34563340 GGGTATTTCAATAATTTTGTAAA-TCGAGGGTAAAACGGTAA-TTCTGTAAATCAGGGGTACTTT
1 GGGTATTTTAGTAATTTTGCAAACT-GAGAGTAAAACGGTAATTTC-ACAAATCAGGGGTACTTT
** *
34563403 GGTAATTTT-TACATGTCGA
64 GGTAATTTTGTA-A-ACCAA
*** *
34563422 GGGTATTTTAGTAATTTTGCAAACTGAGAGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTGCAAACTGAGAGTAAAACGGTAATTTCACAAATCAGGGGTACTTTGG
34563487 TAATTTTGTAAACCAA
66 TAATTTTGTAAACCAA
34563503 GGGTATTTTAGTAATTT
1 GGGTATTTTAGTAATTT
34563520 CACAAATTAG
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
81 19 0.23
82 57 0.70
83 6 0.07
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTGCAAACTGAGAGTAAAACGGTAATTTCACAAATCAGGGGTACTTTGG
TAATTTTGTAAACCAA
Found at i:34563454 original size:27 final size:28
Alignment explanation
Indices: 34563390--34563687 Score: 296
Period size: 27 Copynumber: 11.0 Consensus size: 28
34563380 ATTCTGTAAA
* **
34563390 TCAGGGGTACTTTGGTAATTTTTAC-ATG
1 TCAGGGGTATTTTGGTAA-TTTTACAAAC
* *
34563418 TC-GAGGGTATTTTAGTAATTTTGCAAAC
1 TCAG-GGGTATTTTGGTAATTTTACAAAC
* * * *
34563446 TGA-GAGTATTTCGGTAATTTCACAAA-
1 TCAGGGGTATTTTGGTAATTTTACAAAC
**
34563472 TCAGGGGTATTTTGGTAATTTTGTAAAC
1 TCAGGGGTATTTTGGTAATTTTACAAAC
* * *
34563500 -CAAGGGTATTTTAGTAATTTCACAAA-
1 TCAGGGGTATTTTGGTAATTTTACAAAC
* *
34563526 TTAGGGGTATTTTGGTAATTTTAC-AAG
1 TCAGGGGTATTTTGGTAATTTTACAAAC
** *
34563553 TC-GAGGGTATTTCAGTAATTTCACAAA-
1 TCAG-GGGTATTTTGGTAATTTTACAAAC
*
34563580 TCAGGGGTATTTTGGTAATTTCACAAAC
1 TCAGGGGTATTTTGGTAATTTTACAAAC
34563608 T-AGGGGTATTTTGGTAATTTTACAAAC
1 TCAGGGGTATTTTGGTAATTTTACAAAC
34563635 T-AGGGGTATTTTGGTAATTTTACAAAC
1 TCAGGGGTATTTTGGTAATTTTACAAAC
*
34563662 -CAGGGGTATTTTAGTAATTTTACAAA
1 TCAGGGGTATTTTGGTAATTTTACAAA
34563688 TTAAGGGCAT
Statistics
Matches: 224, Mismatches: 34, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.02
27 199 0.89
28 20 0.09
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (28 bp):
TCAGGGGTATTTTGGTAATTTTACAAAC
Found at i:34563546 original size:81 final size:81
Alignment explanation
Indices: 34563387--34563708 Score: 353
Period size: 81 Copynumber: 4.0 Consensus size: 81
34563377 GTAATTCTGT
* *** * ** *
34563387 AAATCAGGGGTACTTTGGTAATTTTTACATGTCGAGGGTATTTTAGTAATTTTGCAAACT-GAGA
1 AAATCAGGGGTATTTTGGTAA-TTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACTAG-GG
* *
34563451 GTATTTCGGTAATTTCAC
64 GTATTTTGGTAATTTTAC
** *
34563469 AAATCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTCACAAATTAGGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACTAGGGGT
34563534 ATTTTGGTAATTTTAC
66 ATTTTGGTAATTTTAC
* ** * * * *
34563550 AAGTC-GAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGGG
1 AAATCAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACTAGGGG
34563614 TATTTTGGTAATTTTAC
65 TATTTTGGTAATTTTAC
* * * *
34563631 AAA-CTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATTAAGGG
1 AAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACTAGGGG
* *
34563695 CATTTTAGTAATTT
65 TATTTTGGTAATTT
34563709 GGTAAACTAA
Statistics
Matches: 202, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
80 2 0.01
81 178 0.88
82 22 0.11
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACTAGGGGT
ATTTTGGTAATTTTAC
Found at i:34568117 original size:40 final size:40
Alignment explanation
Indices: 34568050--34568281 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
34568040 GAGAATTGAG
* * * *
34568050 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
34568090 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
34568130 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
34568170 AGTGATGTATCCGGACTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
34568210 AGTAATGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
34568250 AGTGATGTATCCAGG-CTAGGTCCCGAAGAGCA
1 AGTGATGTATCC-GGACTAAGTTCCGAAGAGCA
34568282 ATCATGCTGG
Statistics
Matches: 173, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 171 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:34572176 original size:47 final size:47
Alignment explanation
Indices: 34572120--34572518 Score: 591
Period size: 47 Copynumber: 8.4 Consensus size: 47
34572110 ATGTATGAGA
34572120 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
*
34572167 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
* * * *
34572214 TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
*
34572261 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--G
*
34572312 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
* *
34572359 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGG
1 TG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
*
34572408 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
* * * * * *
34572455 TGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAG
1 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
*
34572502 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
34572519 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
47 192 0.59
49 131 0.40
51 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
Found at i:34576464 original size:27 final size:27
Alignment explanation
Indices: 34576446--34576631 Score: 239
Period size: 27 Copynumber: 6.9 Consensus size: 27
34576436 CTTGATTCGT
* *
34576446 AGAATTACCATTTTACCCTTGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
34576473 AGAATTACCGTTTCACCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
34576500 AAAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
34576527 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
34576554 AGAATTACCGTTTCACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
34576581 AAAATTACCATTTTACCCTC-AGTTTAC
1 AGAATTACCATTTTACCCTCGA-TTTAC
* * *
34576608 AAAATTACCGTTTTACCTTCGATT
1 AGAATTACCATTTTACCCTCGATT
34576632 GTGAAATTAT
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 138 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:34576551 original size:81 final size:81
Alignment explanation
Indices: 34576445--34576631 Score: 295
Period size: 81 Copynumber: 2.3 Consensus size: 81
34576435 CCTTGATTCG
* * *
34576445 TAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTCACCCTTGATTTACAAAATTACCA
1 TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCA
34576510 TTTTACCCTC-GATTTA
66 TTTTACCCTCAG-TTTA
34576526 TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCA
1 TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCA
34576591 TTTTACCCTCAGTTTA
66 TTTTACCCTCAGTTTA
* * * *
34576607 CAAAATTACCGTTTTACCTTCGATT
1 TAGAATTACCATTTTACCCTCGATT
34576632 GTGAAATTAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
81 97 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.39
Consensus pattern (81 bp):
TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCA
TTTTACCCTCAGTTTA
Found at i:34576684 original size:27 final size:28
Alignment explanation
Indices: 34576630--34576705 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 28
34576620 TTACCTTCGA
* * *
34576630 TTGTGAAATTATCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCTCAAT
34576657 TTGTAAAATTACCAAAATACCCCT-AAT
1 TTGTAAAATTACCAAAATACCCCTCAAT
** *
34576684 TTACAAAATTACAAAAATACCC
1 TTGTAAAATTACCAAAATACCC
34576706 TTGACTTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 38 0.90
28 4 0.10
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (28 bp):
TTGTAAAATTACCAAAATACCCCTCAAT
Found at i:34576756 original size:27 final size:27
Alignment explanation
Indices: 34576683--34576768 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
34576673 ATACCCCTAA
** *
34576683 TTTACAAAATTACAAAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCCTTG-G
*
34576711 TTT-CTAACAATTA-TAGAAATACCATTGG
1 TTTAC-AA-AATTACT-GAAATACCCTTGG
34576739 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCCTTGG
34576766 TTT
1 TTT
34576769 GTAGATTTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
27 21 0.44
28 11 0.23
29 16 0.33
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCCTTGG
Found at i:34576881 original size:27 final size:27
Alignment explanation
Indices: 34576820--34576886 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
34576810 ATACCCCTAA
*
34576820 TAGG-TAAAAAGACCGTAAAGCCCCTG
1 TAGGATAAAATGACCGTAAAGCCCCTG
* *
34576846 TAGGATAAAGTGACCGTAATA-CCCTTG
1 TAGGATAAAATGACCGTAA-AGCCCCTG
34576873 TATGG-TAAAATGAC
1 TA-GGATAAAATGAC
34576887 GAATATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 4 0.12
27 27 0.79
28 3 0.09
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGGATAAAATGACCGTAAAGCCCCTG
Found at i:34577734 original size:25 final size:24
Alignment explanation
Indices: 34577696--34577765 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
34577686 AGGAAGTGCT
*
34577696 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
34577720 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
34577745 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
34577766 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:34577778 original size:24 final size:24
Alignment explanation
Indices: 34577695--34577778 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
34577685 GAGGAAGTGC
* *
34577695 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
34577720 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
34577744 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
34577768 TAAAAGAGGCT
1 TAAAAG-GGCT
34577779 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:34578014 original size:31 final size:31
Alignment explanation
Indices: 34577979--34578062 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
34577969 TGTTTACAGT
*
34577979 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGACCCAGTGATATGATTTATGA
*
34578010 AAAGGCTTCGACCCAGTGATATGATTTATGG
1 AAAGGCTTCGACCCAGTGATATGATTTATGA
*
34578041 AAAGGCTTCGACTCAGT-ATATG
1 AAAGGCTTCGACCCAGTGATATG
34578063 TCAAGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTGATATGATTTATGA
Found at i:34578875 original size:46 final size:46
Alignment explanation
Indices: 34578817--34578933 Score: 157
Period size: 46 Copynumber: 2.5 Consensus size: 46
34578807 CGTAGCCAAC
*
34578817 GCATGTCCCAGACATGTCTGACACTGGCTAACAT-CTCGAGG-TCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTAACATACT-GAGGCT-GAT
** *
34578863 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTAACATACTGAGGCTGAT
*
34578909 CCATGTCCCAGACATGTCTTACACT
1 GCATGTCCCAGACATGTCTTACACT
34578934 AGCCCTCGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 61 0.95
47 3 0.05
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCTAACATACTGAGGCTGAT
Found at i:34582407 original size:40 final size:40
Alignment explanation
Indices: 34582362--34582529 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
34582352 CGGAATACAA
*
34582362 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
34582402 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* ** *
34582442 CCGGATATAACAACTTGCACGAATGCCTTTGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
34582482 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
34582522 CCGGATAT
1 CCGGATAT
34582530 CATTCAATTG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 106 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:34582502 original size:80 final size:80
Alignment explanation
Indices: 34582362--34582529 Score: 223
Period size: 80 Copynumber: 2.1 Consensus size: 80
34582352 CGGAATACAA
* * *
34582362 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
34582427 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** * *
34582442 CCGGATATAACAACTTGCACGAATGCCTTTGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
34582505 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
34582522 CCGGATAT
1 CCGGATAT
34582530 CATTCAATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 74 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:34588857 original size:38 final size:38
Alignment explanation
Indices: 34588791--34588903 Score: 127
Period size: 38 Copynumber: 2.9 Consensus size: 38
34588781 ATTTGATGTG
* *
34588791 TATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
* **
34588831 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
34588869 TATCAGGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
34588904 TTATATTCGG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 50 0.79
39 5 0.08
40 8 0.13
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:34588960 original size:43 final size:43
Alignment explanation
Indices: 34588907--34589238 Score: 511
Period size: 43 Copynumber: 7.5 Consensus size: 43
34588897 GCTGGTATTA
34588907 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
34588950 TATTCAGGCCTTCGTGTCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
34588993 CATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
34589036 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
34589079 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
34589122 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCA--------G---GCTTCGTGCCGGTGATGTG
* *
34589176 TATTCGGGCCTTCGTGCCTAGCTGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
34589219 TATTCGGGCCTTCGTGCCTA
1 TATTCGGGCCTTCGTGCCTA
34589239 ACAGACGTAA
Statistics
Matches: 268, Mismatches: 10, Indels: 22
0.89 0.03 0.07
Matches are distributed among these distances:
43 225 0.84
46 1 0.00
51 1 0.00
54 41 0.15
ACGTcount: A:0.09, C:0.26, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:34589175 original size:54 final size:54
Alignment explanation
Indices: 34589103--34589207 Score: 201
Period size: 54 Copynumber: 1.9 Consensus size: 54
34589093 TGCCTAGTAG
34589103 GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCA
1 GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCA
*
34589157 GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCTGGCTTCGTG
1 GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG
34589208 TCGGTGATGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.08, C:0.27, G:0.34, T:0.31
Consensus pattern (54 bp):
GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCA
Found at i:34589175 original size:97 final size:97
Alignment explanation
Indices: 34589060--34589238 Score: 333
Period size: 97 Copynumber: 1.8 Consensus size: 97
34589050 TGCCTAGCAG
34589060 GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAG-TAGGCTTCGTGCCGGTGATGTGTA
1 GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCT-GGCTTCGTGCCGGTGATGTGTA
34589124 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCA
65 TTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCA
*
34589157 GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCTGGCTTCGTGTCGGTGATGTGTAT
1 GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCTGGCTTCGTGCCGGTGATGTGTAT
34589222 TCGGGCCTTCGTGCCTA
66 TCGGGCCTTCGTGCCTA
34589239 ACAGACGTAA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
97 79 0.99
98 1 0.01
ACGTcount: A:0.08, C:0.25, G:0.34, T:0.32
Consensus pattern (97 bp):
GCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCTGGCTTCGTGCCGGTGATGTGTAT
TCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCA
Found at i:34589256 original size:43 final size:43
Alignment explanation
Indices: 34589163--34589257 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
34589153 GCCAGCTTCG
* * * * **
34589163 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCTGGCTTCG
1 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGACGTAA
*
34589206 TGTCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGACGTAA
1 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGACGTAA
34589249 TGCCGGTGA
1 TGCCGGTGA
34589258 AATGATATGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.31
Consensus pattern (43 bp):
TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAACAGACGTAA
Found at i:34590971 original size:3 final size:3
Alignment explanation
Indices: 34590963--34591025 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
34590953 TCCTTATTCC
34590963 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
34591011 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
34591026 CTCTATTTAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:34592365 original size:20 final size:20
Alignment explanation
Indices: 34592340--34592386 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 20
34592330 TATGTTTATG
34592340 TTTATTTTTATCTTTTA-TCT
1 TTTATTTTTA-CTTTTATTCT
34592360 TTTATTTTTACTTTTATTCT
1 TTTATTTTTACTTTTATTCT
34592380 TCTTATT
1 T-TTATT
34592387 ATGTCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.24
20 14 0.56
21 5 0.20
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTTTTACTTTTATTCT
Found at i:34592368 original size:6 final size:6
Alignment explanation
Indices: 34592311--34592377 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
34592301 TTGAGTCCGA
* * * *
34592311 TTATTT TTATGT TTATGT TTATGT TTATGT TTATTT TTATCTT TTATCTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT-TT TTAT-TT
*
34592361 TTATTT TTACTT TTATT
1 TTATTT TTATTT TTATT
34592378 CTTCTTATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
6 43 0.77
7 13 0.23
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.73
Consensus pattern (6 bp):
TTATTT
Found at i:34594705 original size:42 final size:42
Alignment explanation
Indices: 34594648--34594808 Score: 191
Period size: 42 Copynumber: 3.8 Consensus size: 42
34594638 AATTCCGTAT
** * *
34594648 CGATGCCTCTGTCCCAGATAGGGTCTTACACGAAATCAGATA
1 CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
*
34594690 CGATGCCGATGTCCCAGACATGGTCTTACACAAAATCAGATA
1 CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
*
34594732 CGATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-
1 CGATGCCGATGTCCCAGACATGGTCTTACACG-AAA--TCAGATA
* * *
34594776 CGAGGCTTG-TGTCCCAGACACGGTCTTACACGA
1 CGATGC-CGATGTCCCAGACATGGTCTTACACGA
34594809 TATCTCAGAT
Statistics
Matches: 105, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
42 68 0.65
43 4 0.04
44 27 0.26
45 6 0.06
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (42 bp):
CGATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATA
Found at i:34595831 original size:11 final size:11
Alignment explanation
Indices: 34595815--34595839 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34595805 GGTACTTTTA
34595815 ACATCTAGCAC
1 ACATCTAGCAC
34595826 ACATCTAGCAC
1 ACATCTAGCAC
34595837 ACA
1 ACA
34595840 GTTTTCACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (11 bp):
ACATCTAGCAC
Found at i:34600320 original size:46 final size:46
Alignment explanation
Indices: 34600229--34600351 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 46
34600219 CATTTGTGTG
* *
34600229 AGCTAGTGTAAGACCATGTCTGGGACATTGCATCGATATTAAGACG-A
1 AGCTAGTGTAAGA-CATGTCTGGGACA-TGCATCGACATCAAGACGTA
* * * * *
34600276 GTGCTAGTGTAATACATGTTTGGGACATGCATCGACCTCGAGACGTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCAAGACGTA
*
34600323 AGCTAGCGTAAGACATGTCTGGGACATGC
1 AGCTAGTGTAAGACATGTCTGGGACATGC
34600352 GTGGGCTAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 39 0.62
47 13 0.21
48 11 0.17
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGACATCAAGACGTA
Found at i:34607461 original size:27 final size:26
Alignment explanation
Indices: 34607431--34607619 Score: 155
Period size: 27 Copynumber: 7.0 Consensus size: 26
34607421 CTTGTAAGGT
* *
34607431 AAAATTATCGAAATACCCTTGGTTTAC
1 AAAATTA-CGAAATACCCTTGATTTGC
* * * *
34607458 AAAATTACCGAAATACTCTCGACTTGT
1 AAAATTA-CGAAATACCCTTGATTTGC
** *
34607485 AAAATTACCGAAATACCCTCAATTTGT
1 AAAATTA-CGAAATACCCTTGATTTGC
* *
34607512 AAAATTACCAAAATACCCTTGATTTGG
1 AAAATTA-CGAAATACCCTTGATTTGC
* * *
34607539 AAAATTACAAAAATACCCCTGATTTAC
1 AAAATTAC-GAAATACCCTTGATTTGC
34607566 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTAC-GAAATACCCTTGA-TTTGC
*
34607593 AAAAATTACAGAAATACCCTTGGTTTG
1 -AAAATTAC-GAAATACCCTTGATTTG
34607620 TAGATTTACC
Statistics
Matches: 138, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 113 0.82
28 24 0.17
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
AAAATTACGAAATACCCTTGATTTGC
Found at i:34607489 original size:54 final size:54
Alignment explanation
Indices: 34607429--34607614 Score: 205
Period size: 54 Copynumber: 3.4 Consensus size: 54
34607419 CCCTTGTAAG
* * *
34607429 GTAAAATTATC-GAAATACCCTTGGTTTACAAAATTACCGAAATACTCTCGACTT
1 GTAAAATTA-CAGAAATACCCTTGATTTACAAAATTACCGAAATACCCTTGACTT
* ** ** * *
34607483 GTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTT
1 GTAAAATTACAGAAATACCCTTGATTTACAAAATTACCGAAATACCCTTGACTT
* * * *
34607537 GGAAAATTACAAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTT
1 GTAAAATTACAGAAATACCCTTGATTTACAAAATTACCGAAATACCCTTGACTT
34607591 -TCAAAAATTACAGAAATACCCTTG
1 GT--AAAATTACAGAAATACCCTTG
34607615 GTTTGTAGAT
Statistics
Matches: 106, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
53 1 0.01
54 86 0.81
55 19 0.18
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (54 bp):
GTAAAATTACAGAAATACCCTTGATTTACAAAATTACCGAAATACCCTTGACTT
Found at i:34607639 original size:55 final size:54
Alignment explanation
Indices: 34607431--34607641 Score: 183
Period size: 54 Copynumber: 3.9 Consensus size: 54
34607421 CTTGTAAGGT
* ** * * * * **
34607431 AAAATTATC-GAAATACCCTTGGTTTACAAAATTACCGAAATACTCTCGACTTGT
1 AAAATTA-CAGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTCA
* ** **
34607485 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTGG
1 AAAATTACAGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTCA
* * **
34607539 AAAATTACAAAAATACCCCTGATTTACAAAATTA-CAGAAATACCCTTGACTTTCA
1 AAAATTACAGAAATACCCTTGATTTGTAAAATTACCA-AAATACCCTTGA-TTTCA
* * * *
34607594 AAAATTACAGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 AAAATTACAGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTG
34607642 TAGGGTGAAA
Statistics
Matches: 126, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
53 3 0.02
54 81 0.64
55 40 0.32
56 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACAGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTCA
Found at i:34607768 original size:20 final size:20
Alignment explanation
Indices: 34607745--34607789 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
34607735 GGCGATGTTT
34607745 TGATTGAGAATG-TATGACTG
1 TGATTG-GAATGTTATGACTG
* *
34607765 TGATTGGATTGTTGTGACTG
1 TGATTGGAATGTTATGACTG
34607785 TGATT
1 TGATT
34607790 TGTATGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.22, C:0.04, G:0.31, T:0.42
Consensus pattern (20 bp):
TGATTGGAATGTTATGACTG
Found at i:34607924 original size:41 final size:41
Alignment explanation
Indices: 34607879--34608002 Score: 203
Period size: 41 Copynumber: 3.0 Consensus size: 41
34607869 GAGGAAGAAA
*
34607879 TTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACCGG
1 TTGAGGATTGCATGGTTGCTTGATGATCGTGGATCCACCGG
* *
34607920 TTGAGGATTGCATGGTTGTTTGATGATCGTGGATCCACCGA
1 TTGAGGATTGCATGGTTGCTTGATGATCGTGGATCCACCGG
* *
34607961 TTAAGGATTGCATGGTTGCTTGATGACCGTGGATCCACCGG
1 TTGAGGATTGCATGGTTGCTTGATGATCGTGGATCCACCGG
34608002 T
1 T
34608003 GGCTTTTAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (41 bp):
TTGAGGATTGCATGGTTGCTTGATGATCGTGGATCCACCGG
Found at i:34610127 original size:93 final size:93
Alignment explanation
Indices: 34609967--34610187 Score: 241
Period size: 93 Copynumber: 2.4 Consensus size: 93
34609957 CATTTGTGTG
* * *
34609967 AGCTAGTGTAAGGCCATGTCTGGGACATGGCATCGGGAATAAGATGAGTGCTAGTGTAAGACATG
1 AGCTAGTGTAA-GTCATGTCTGGGACATGGCATCGGCAACAAGATGAGTGCTAGTGTAAGACATG
* *
34610032 TCTAGGACAT-GCATCAGCCTTGAGATGTA
65 TCTAGGACATGGCATC-GACTTGAGATATA
* * * *
34610061 AGCTAGTGTAAGTCATGTCTGGGACAT-GCGTCGGCTACGAGATGA-TAGTTAGTGTAAGACCAT
1 AGCTAGTGTAAGTCATGTCTGGGACATGGCATCGGCAACAAGATGAGT-GCTAGTGTAAGA-CAT
* * *
34610124 GTCTGGGACATGGCTTCGACTTGAGATATG
64 GTCTAGGACATGGCATCGACTTGAGATATA
* * *
34610154 AGCCAGTGTAAGATCGTGTCTGGGACACGGCATC
1 AGCTAGTGTAAG-TCATGTCTGGGACATGGCATC
34610188 AGTACCTTAC
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
91 1 0.01
92 24 0.23
93 49 0.46
94 28 0.26
95 4 0.04
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (93 bp):
AGCTAGTGTAAGTCATGTCTGGGACATGGCATCGGCAACAAGATGAGTGCTAGTGTAAGACATGT
CTAGGACATGGCATCGACTTGAGATATA
Found at i:34610150 original size:47 final size:48
Alignment explanation
Indices: 34609967--34610180 Score: 178
Period size: 46 Copynumber: 4.6 Consensus size: 48
34609957 CATTTGTGTG
* * *
34609967 AGCTAGTGTAAGGCCATGTCTGGGACATGGCATCGGGA-ATAAGATGAGT-
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATC-GGACTTGAGATGA-TA
* * *
34610016 -GCTAGTGTAAGA-CATGTCTAGGACATGCATCAGCCTTGAGATG-TA
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGACTTGAGATGATA
* * *
34610061 AGCTAGTGTAAG-TCATGTCTGGGACATGCGTCGG-CTACGAGATGAT-
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGACT-TGAGATGATA
* * *
34610107 AGTTAGTGTAAGACCATGTCTGGGACATGGCTTC-GACTTGAGAT-ATG
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGACTTGAGATGATA
* * *
34610154 AGCCAGTGTAAGATCGTGTCTGGGACA
1 AGCTAGTGTAAGACCATGTCTGGGACA
34610181 CGGCATCAGT
Statistics
Matches: 137, Mismatches: 18, Indels: 22
0.77 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 59 0.43
47 57 0.42
48 17 0.12
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (48 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGACTTGAGATGATA
Found at i:34622956 original size:27 final size:26
Alignment explanation
Indices: 34622908--34622967 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
34622898 GCGAGGCTGG
*
34622908 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * * *
34622935 CAGATATTGTGGCTAGGCCACCATAA
1 CAGATATTGTGACGAAGCCACCAGAA
34622961 CAGATAT
1 CAGATAT
34622968 ATATATATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:34624915 original size:40 final size:40
Alignment explanation
Indices: 34624813--34624996 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
34624803 AAATTGAATG
* * * * *
34624813 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
34624853 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
34624893 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
34624933 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
34624973 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
34624997 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:34633038 original size:40 final size:40
Alignment explanation
Indices: 34632936--34633119 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
34632926 AAATTGAATG
* * * * *
34632936 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
34632976 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
34633016 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
34633056 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
34633096 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
34633120 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:34635124 original size:26 final size:27
Alignment explanation
Indices: 34635095--34635146 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
34635085 TCACACAAGT
* *
34635095 TAGTCA-TTTACGCATGAGGGGTAAAA
1 TAGTCAGTTTACCCATCAGGGGTAAAA
*
34635121 TAGTCAGTTTACCCTTCAGGGGTAAA
1 TAGTCAGTTTACCCATCAGGGGTAAA
34635147 TTGGTAGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (27 bp):
TAGTCAGTTTACCCATCAGGGGTAAAA
Found at i:34635179 original size:27 final size:27
Alignment explanation
Indices: 34635130--34635321 Score: 206
Period size: 27 Copynumber: 7.1 Consensus size: 27
34635120 ATAGTCAGTT
* * * *
34635130 TACCCTTCAGGGGTAAATT-GGTAGTCC
1 TACCCTACAGGGGT-ATTTCGGTAATTC
*
34635157 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * ** *
34635184 TACCCAACAAGAATATTTCGATAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
34635211 TATCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * ***
34635238 TACCCTAGAGGGTTATTTTAATAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
34635265 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
34635292 TACCTTACAGGGGTATTTCGATAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
34635319 TAC
1 TAC
34635322 AACTTACCCA
Statistics
Matches: 135, Mismatches: 29, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
26 3 0.02
27 132 0.98
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:34638231 original size:28 final size:28
Alignment explanation
Indices: 34638167--34638231 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
34638157 ATTGCATGAC
*
34638167 TATGAATGTGATTGGGGCCGATGGGCCA
1 TATGAATGTGATTGGGGCCGATGAGCCA
* *
34638195 TTTGAATGTGATT-GGGCCTAGTGAGCCA
1 TATGAATGTGATTGGGGCCGA-TGAGCCA
*
34638223 TATGCATGT
1 TATGAATGT
34638232 ATGTAGACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.31
Consensus pattern (28 bp):
TATGAATGTGATTGGGGCCGATGAGCCA
Found at i:34639501 original size:17 final size:18
Alignment explanation
Indices: 34639468--34639501 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34639458 TTCAAAGAAG
34639468 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
34639486 GGTTTTCAAT-AAAACA
1 GGTTTTCAATGAAAACA
34639502 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:34641130 original size:22 final size:22
Alignment explanation
Indices: 34641088--34641130 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
34641078 GAAATGTCGA
*
34641088 AGTTAAATCGAATATGAATGTG
1 AGTTAAATCGAATAGGAATGTG
*
34641110 AGTTAAAT-GAATCAGGTATGT
1 AGTTAAATCGAAT-AGGAATGT
34641131 TTAAAGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (22 bp):
AGTTAAATCGAATAGGAATGTG
Found at i:34645593 original size:11 final size:11
Alignment explanation
Indices: 34645557--34645612 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
34645547 CATGGTATGT
34645557 ATGATATGCAC
1 ATGATATGCAC
* *
34645568 ATGACATG--T
1 ATGATATGCAC
34645577 ATGATATGCAC
1 ATGATATGCAC
*
34645588 ATGATATG--T
1 ATGATATGCAC
34645597 ATGATATGCAC
1 ATGATATGCAC
34645608 ATGAT
1 ATGAT
34645613 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34645612 original size:20 final size:20
Alignment explanation
Indices: 34645546--34645612 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
34645536 ATTTTGATAA
*
34645546 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34645566 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34645586 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34645606 ACATGAT
1 ACATGAT
34645613 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34645753 original size:46 final size:47
Alignment explanation
Indices: 34645661--34645783 Score: 185
Period size: 47 Copynumber: 2.6 Consensus size: 47
34645651 GGAGGAAGTG
*
34645661 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT--TAAAGGGCTTATGCCACAGTTAT
* *
34645710 T-AAAGGGCTTCTACCCCAGTTATTAAAGGGCTTATGCCACAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCACAGTTAT
*
34645756 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 TAAAAGGGCTTATGCCCCAGTTATTAAA
34645784 AGAGGCTAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
46 23 0.34
47 24 0.35
48 20 0.29
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCACAGTTAT
Found at i:34645766 original size:24 final size:24
Alignment explanation
Indices: 34645661--34645790 Score: 183
Period size: 23 Copynumber: 5.4 Consensus size: 24
34645651 GGAGGAAGTG
34645661 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
34645685 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
34645710 T-AAAGGGCTTCTACCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
34645733 T-AAAGGGCTTATGCCACAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
34645756 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
34645780 TAAAAGAGGCT
1 TAAAAG-GGCT
34645791 AGGCCTCCAA
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
23 41 0.44
24 27 0.29
25 26 0.28
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:34646033 original size:31 final size:31
Alignment explanation
Indices: 34645998--34646064 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
34645988 CGTTTACAGT
34645998 AAAGGCTTCGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
34646029 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
34646060 AAAGG
1 AAAGG
34646065 GCTATGGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:34650352 original size:43 final size:43
Alignment explanation
Indices: 34650305--34650396 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
34650295 GAGCCACTAT
* * *
34650305 AAGTCATGGCTTTTAGCGGCGTTTGTTAAAAAAGTGTCGCTAA
1 AAGTCATAGCTTTTAGCGGCGTTTGTTAAAAAAGCGCCGCTAA
**
34650348 AAGTCATAGCTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAA
1 AAGTCATAGCTTTTAGCGGCGTTTGTTAAAAAAGCGCCGCTAA
34650391 AAGTCA
1 AAGTCA
34650397 CTTTTAGCCG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
AAGTCATAGCTTTTAGCGGCGTTTGTTAAAAAAGCGCCGCTAA
Found at i:34650580 original size:21 final size:21
Alignment explanation
Indices: 34650556--34650605 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
34650546 ACCATCACTA
34650556 CTACCTCTGCCTCCCT-TGCTG
1 CTACCTCTGCCTCCCTCT-CTG
*
34650577 CTACCGCTGCCTCCCTCTCTG
1 CTACCTCTGCCTCCCTCTCTG
*
34650598 CTGCCTCT
1 CTACCTCT
34650606 ACTCTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.04, C:0.50, G:0.14, T:0.32
Consensus pattern (21 bp):
CTACCTCTGCCTCCCTCTCTG
Found at i:34651041 original size:13 final size:14
Alignment explanation
Indices: 34651014--34651042 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34651004 ACTAATGACG
34651014 AATTAAACTATTAT
1 AATTAAACTATTAT
34651028 AATTAAAC-ATTAT
1 AATTAAACTATTAT
34651041 AA
1 AA
34651043 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACTATTAT
Found at i:34656163 original size:9 final size:9
Alignment explanation
Indices: 34656149--34656264 Score: 69
Period size: 9 Copynumber: 13.1 Consensus size: 9
34656139 TATGTATTAC
*
34656149 GTAAGTTAA
1 GTAAGTTAT
*
34656158 GTAAGTTTT
1 GTAAGTTAT
34656167 GTAAGTTAT
1 GTAAGTTAT
34656176 GTAAGTTAT
1 GTAAGTTAT
* *
34656185 GTTA-TGAT
1 GTAAGTTAT
* *
34656193 ATACATTTAT
1 GTA-AGTTAT
*
34656203 GTAAGGTAT
1 GTAAGTTAT
34656212 GTAAGTTAT
1 GTAAGTTAT
* **
34656221 GATATGACAT
1 G-TAAGTTAT
* *
34656231 AT-ATTTAT
1 GTAAGTTAT
*
34656239 GT-A-CTAT
1 GTAAGTTAT
34656246 GTAAGTTAT
1 GTAAGTTAT
34656255 GTAAGTTAT
1 GTAAGTTAT
34656264 G
1 G
34656265 ATATGATATA
Statistics
Matches: 79, Mismatches: 23, Indels: 10
0.71 0.21 0.09
Matches are distributed among these distances:
7 5 0.06
8 9 0.11
9 55 0.70
10 10 0.13
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:34656213 original size:36 final size:36
Alignment explanation
Indices: 34656166--34656256 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
34656156 AAGTAAGTTT
* *
34656166 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGCTATGTAAGTTATGTTATGACATACATTTA
* * *
34656202 TGTAAGGTATGTAAGTTATGATATGACATATATTTA
1 TGTAAGCTATGTAAGTTATGTTATGACATACATTTA
34656238 TGT-A-CTATGTAAGTTATGT
1 TGTAAGCTATGTAAGTTATGT
34656257 AAGTTATGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
34 13 0.27
35 1 0.02
36 35 0.71
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (36 bp):
TGTAAGCTATGTAAGTTATGTTATGACATACATTTA
Found at i:34656256 original size:43 final size:43
Alignment explanation
Indices: 34656200--34656290 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
34656190 GATATACATT
34656200 TATGTAAGGTATGTAAGTTATGATATGACATATATTTATGTAC
1 TATGTAAGGTATGTAAGTTATGATATGACATATATTTATGTAC
* * *
34656243 TATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAT
1 TATGTAAGGTATGTAAGTTATGATATGACATATATTTATGTAC
34656286 TATGT
1 TATGT
34656291 GGGTTAAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (43 bp):
TATGTAAGGTATGTAAGTTATGATATGACATATATTTATGTAC
Found at i:34656720 original size:3 final size:3
Alignment explanation
Indices: 34656700--34656736 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
34656690 ATACTCGAAT
*
34656700 CAA CAAA CAA CAA AAA CAA CAA CAA CAA CAA CAA CAA
1 CAA C-AA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
34656737 TAATAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:34659962 original size:83 final size:83
Alignment explanation
Indices: 34659800--34659999 Score: 215
Period size: 83 Copynumber: 2.4 Consensus size: 83
34659790 GTAATTCAGT
* * * * * * *
34659800 TTTTTTGCGGCATTTTTAAGTTAGCGCCACTAATTCCTAAACCGCGCCACATAAAACGACGTAGT
1 TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATCCT-AACCCCGCCAAATAAAACGACGTAGT
* *
34659865 TTCCATTCAGTTTCTCATA
65 TTCCATACAATTTCTCATA
* *
34659884 TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATCACT-ACCCCTCCAAATAAAATGACG-ACG
1 TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATC-CTAACCCCGCCAAATAAAACGACGTA-G
34659947 TTTCCATACAATTTCTCATA
64 TTTCCATACAATTTCTCATA
* * * **
34659967 CTTTTAGCGGTGTTTATGACCTAGCGCCACTAA
1 TTTTTAGCGGCGTTTATAAGATAGCGCCACTAA
34660000 CTCCACTGTC
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
82 1 0.01
83 64 0.65
84 31 0.32
85 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (83 bp):
TTTTTAGCGGCGTTTATAAGATAGCGCCACTAAATCCTAACCCCGCCAAATAAAACGACGTAGTT
TCCATACAATTTCTCATA
Found at i:34660278 original size:7 final size:7
Alignment explanation
Indices: 34660256--34660376 Score: 63
Period size: 7 Copynumber: 17.0 Consensus size: 7
34660246 AACCAATAGA
34660256 CTAAACC
1 CTAAACC
34660263 CTAATACC
1 CTAA-ACC
34660271 CTAAACC
1 CTAAACC
* **
34660278 CTATAGG
1 CTAAACC
34660285 CTAAACC
1 CTAAACC
34660292 CTAAA-C
1 CTAAACC
34660298 CTAATACC
1 CTAA-ACC
34660306 C-AATACC
1 CTAA-ACC
*
34660313 CAAAATCC
1 CTAAA-CC
34660321 CTAAACC
1 CTAAACC
*
34660328 C-AATGCC
1 CTAA-ACC
34660335 CTAAACC
1 CTAAACC
* *
34660342 TTATAA-A
1 CTA-AACC
*
34660349 CTAAATC
1 CTAAACC
*
34660356 TTAAA-C
1 CTAAACC
34660362 CTAATACC
1 CTAA-ACC
34660370 CTAAACC
1 CTAAACC
34660377 TTGAACCTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
6 13 0.15
7 49 0.56
8 26 0.30
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:34660290 original size:14 final size:14
Alignment explanation
Indices: 34660251--34660294 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
34660241 CCCAAAACCA
34660251 ATAGACTAAACCCT
1 ATAGACTAAACCCT
**
34660265 AATACCCTAAACCCT
1 -ATAGACTAAACCCT
*
34660280 ATAGGCTAAACCCT
1 ATAGACTAAACCCT
34660294 A
1 A
34660295 AACCTAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.41, C:0.32, G:0.07, T:0.20
Consensus pattern (14 bp):
ATAGACTAAACCCT
Found at i:34660869 original size:21 final size:21
Alignment explanation
Indices: 34660830--34660874 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
34660820 TTTTTAATAT
*
34660830 TTTAGGGTTTTTGATTTAAGAG
1 TTTAGGGTTTATGATTTAAG-G
34660852 TTTAGGGTTTAT-ATTTAAGG
1 TTTAGGGTTTATGATTTAAGG
34660872 TTT
1 TTT
34660875 GAGATTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 7 0.32
22 11 0.50
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTATGATTTAAGG
Found at i:34660909 original size:7 final size:7
Alignment explanation
Indices: 34660892--34661022 Score: 56
Period size: 8 Copynumber: 17.7 Consensus size: 7
34660882 AGGGCCTAAA
34660892 TTTATGGG
1 TTTA-GGG
34660900 TTTAGGG
1 TTTAGGG
34660907 TTTAAGGG
1 TTT-AGGG
34660915 -TTAGGAG
1 TTTAGG-G
*
34660922 -TCAGGG
1 TTTAGGG
*
34660928 TTAATGGG
1 TTTA-GGG
*
34660936 -TTAGGA
1 TTTAGGG
34660942 TTTATGGG
1 TTTA-GGG
34660950 -TTAGGG
1 TTTAGGG
* *
34660956 TCTAGTG
1 TTTAGGG
*
34660963 TTTAGAGT
1 TTTAG-GG
34660971 TTTAAGGG
1 TTT-AGGG
*
34660979 TTTAAAGG
1 TTT-AGGG
34660987 TTTAGTGG
1 TTTAG-GG
34660995 TTTAAGGG
1 TTT-AGGG
34661003 TTTAGTGCG
1 TTTAG-G-G
34661012 -TTAGGG
1 TTTAGGG
34661018 TTTAG
1 TTTAG
34661023 ATAAAATCAT
Statistics
Matches: 96, Mismatches: 13, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
6 10 0.10
7 39 0.41
8 42 0.44
9 5 0.05
ACGTcount: A:0.21, C:0.02, G:0.37, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:34661199 original size:6 final size:6
Alignment explanation
Indices: 34661179--34661212 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
34661169 AGATATGATC
34661179 AAAT-A AAAT-A AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
34661213 TACTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 9 0.32
6 19 0.68
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:34663308 original size:19 final size:17
Alignment explanation
Indices: 34663266--34663301 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
34663256 AATTCCAAGG
34663266 TAGTTGGGAAATGTACT
1 TAGTTGGGAAATGTACT
34663283 TAGTTGGGAAATGTACT
1 TAGTTGGGAAATGTACT
34663300 TA
1 TA
34663302 CAGTTGGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.36
Consensus pattern (17 bp):
TAGTTGGGAAATGTACT
Found at i:34664364 original size:27 final size:27
Alignment explanation
Indices: 34664310--34664420 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
34664300 AGCATGGCTG
* *
34664310 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
34664336 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
34664363 CCAGAACAGAT-GTATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
34664390 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
34664417 CCAG
1 CCAG
34664421 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.19
27 59 0.80
28 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:34665841 original size:24 final size:23
Alignment explanation
Indices: 34665808--34665913 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 23
34665798 GCCGGCCAAC
*
34665808 TCTTGCTCCTTGATTAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
34665833 TCTTCTCCTTTATCAGCTCCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
* * *
34665857 TCCTCTCCCTTACCAGCCCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
34665881 TCGTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
34665905 TCTTCTCCT
1 TCTTCTCCT
34665914 GACAGCCTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 3 0.04
24 60 0.85
25 8 0.11
ACGTcount: A:0.19, C:0.38, G:0.07, T:0.37
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:34671403 original size:30 final size:30
Alignment explanation
Indices: 34671348--34671507 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
34671338 ATAGTGAATC
34671348 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
34671377 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
34671407 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
34671436 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
34671464 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
34671494 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34671508 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:34671440 original size:59 final size:57
Alignment explanation
Indices: 34671348--34671507 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
34671338 ATAGTGAATC
*
34671348 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
34671407 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
34671464 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
34671508 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:34675460 original size:27 final size:27
Alignment explanation
Indices: 34675406--34675516 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
34675396 AGCATGGCTG
* * *
34675406 CCAGAATAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
34675432 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
34675459 CCAGAACAGAT-GTATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
34675486 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
34675513 CCAG
1 CCAG
34675517 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.17
27 61 0.81
28 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:34676935 original size:24 final size:23
Alignment explanation
Indices: 34676902--34677007 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 23
34676892 GCCGGCCAAC
34676902 TCTTGCTCCTTGATCAACTCCTAAA
1 TCTT-CTCCTT-ATCAACTCCTAAA
*
34676927 TCTTCTCCTTTATCAGCTCCTAAA
1 TCTTCTCC-TTATCAACTCCTAAA
* *
34676951 TCCTCTCCCTTATCAACCCCTAAA
1 TCTTCT-CCTTATCAACTCCTAAA
* *
34676975 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAACTCCTAAA
34676999 TCTTCTCCT
1 TCTTCTCCT
34677008 GACAGCCTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 3 0.04
24 61 0.85
25 8 0.11
ACGTcount: A:0.21, C:0.39, G:0.04, T:0.37
Consensus pattern (23 bp):
TCTTCTCCTTATCAACTCCTAAA
Found at i:34676988 original size:48 final size:49
Alignment explanation
Indices: 34676909--34677006 Score: 153
Period size: 48 Copynumber: 2.0 Consensus size: 49
34676899 AACTCTTGCT
* * *
34676909 CCTTGATCAACTCCTAAATCTTCTCCTTTATCAGCTCCTAAATCCTCTC
1 CCTTGATCAACCCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
*
34676958 CCTT-ATCAACCCCTAAATCCTCTCCCTTATCAGCTCCTAAATCTTCTC
1 CCTTGATCAACCCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
34677006 C
1 C
34677007 TGACAGCCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.22, C:0.40, G:0.03, T:0.35
Consensus pattern (49 bp):
CCTTGATCAACCCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
Found at i:34678488 original size:32 final size:32
Alignment explanation
Indices: 34678425--34678488 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
34678415 CACTCACAAA
* **
34678425 GTCAAAGTCAACCCACTCACAAAGTTTATGGT
1 GTCAAAGGCAACCCACTCACAAAGTCCATGGT
34678457 GTCAAAGGCAACCCACTCACAAAGTCCATGGT
1 GTCAAAGGCAACCCACTCACAAAGTCCATGGT
34678489 TACCCTCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.20
Consensus pattern (32 bp):
GTCAAAGGCAACCCACTCACAAAGTCCATGGT
Found at i:34682307 original size:15 final size:16
Alignment explanation
Indices: 34682289--34682329 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
34682279 AAAAACAAGT
*
34682289 TTTTTTTAAAT-TTTG
1 TTTTTGTAAATCTTTG
*
34682304 TTTTTGAAAATCTTTG
1 TTTTTGTAAATCTTTG
34682320 TTTTTGTAAA
1 TTTTTGTAAA
34682330 CCCATTCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (16 bp):
TTTTTGTAAATCTTTG
Found at i:34684093 original size:37 final size:37
Alignment explanation
Indices: 34684034--34684136 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
34684024 CGAATAGTCC
* * *
34684034 CCACGCGTAGTTATCGGATCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
34684071 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
34684108 CCACACGTAGTCGTCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
34684137 ATATATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:34684335 original size:48 final size:48
Alignment explanation
Indices: 34684277--34684509 Score: 412
Period size: 48 Copynumber: 4.9 Consensus size: 48
34684267 ATATACACAC
* *
34684277 ATCTCCTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
34684325 ATCTCATACATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
34684373 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
34684421 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
34684469 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
34684510 CACATATATA
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:34687483 original size:27 final size:27
Alignment explanation
Indices: 34687392--34687483 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
34687382 GATAATGTAT
* *
34687392 AGAGTCACCAGAACAGATAATTGTGGC
1 AGAGCCACCAGATCAGATAATTGTGGC
* *
34687419 AGAGCCACCAAAAT-AGAT-GTATGTGGC
1 AGAGCCACC-AGATCAGATAAT-TGTGGC
34687446 AGAGCCACCAGATCAGATAATTGTGGC
1 AGAGCCACCAGATCAGATAATTGTGGC
*
34687473 ATAGCCACCAG
1 AGAGCCACCAG
34687484 GATGCTTCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
26 4 0.07
27 47 0.87
28 3 0.06
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
AGAGCCACCAGATCAGATAATTGTGGC
Found at i:34688905 original size:24 final size:23
Alignment explanation
Indices: 34688872--34688977 Score: 113
Period size: 24 Copynumber: 4.4 Consensus size: 23
34688862 GCCGGCCAAC
*
34688872 TCTTGCTCCTTGATCAACTTCTAAA
1 TCTT-CTCCTT-ATCAACTCCTAAA
*
34688897 TCTTCTCCTTTATCAGCTCCTAAA
1 TCTTCTCC-TTATCAACTCCTAAA
* *
34688921 TCCTCTCCCTTATCAACCCCTAAA
1 TCTTCT-CCTTATCAACTCCTAAA
* *
34688945 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAACTCCTAAA
34688969 TCTTCTCCT
1 TCTTCTCCT
34688978 GACACCTTTC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 3 0.04
24 60 0.85
25 8 0.11
ACGTcount: A:0.21, C:0.38, G:0.04, T:0.38
Consensus pattern (23 bp):
TCTTCTCCTTATCAACTCCTAAA
Found at i:34694292 original size:41 final size:40
Alignment explanation
Indices: 34694235--34694385 Score: 178
Period size: 41 Copynumber: 3.8 Consensus size: 40
34694225 CGAATGGTAT
* * *
34694235 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCTTTTGTGC-GAGTTACTAAAA
*
34694276 CCGGGTTAAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGC-TTTTGTGCGAGTTACTAAAA
* * *
34694317 CCGGGTTAAG-CCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAAA
* * **
34694356 CCGGGTAAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCTTTTGTGCGA
34694386 ATCACTATAA
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 24 0.25
40 26 0.27
41 38 0.40
42 8 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAAA
Found at i:34694370 original size:80 final size:81
Alignment explanation
Indices: 34694235--34694385 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 81
34694225 CGAATGGTAT
* * * *
34694235 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTAAAGTCCCGAAGGCA-AT
34694300 TGTGCGAGTTACCAAAA
65 TGTGCGAGTTACCAAAA
* * * * *
34694317 CCGGGTTAAG-CCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTAAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTAAAGTCCCGAAGGCAATT
34694380 GTGCGA
66 GTGCGA
34694386 ATCACTATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
79 8 0.13
80 28 0.47
81 15 0.25
82 9 0.15
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTAAAGTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:34702556 original size:39 final size:39
Alignment explanation
Indices: 34702448--34702597 Score: 158
Period size: 40 Copynumber: 3.8 Consensus size: 39
34702438 CGAATGGTAT
* * * *
34702448 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTAC-AAAA
* *
34702489 TCGGGTT-AGTCCCGAAGGCATTTTGTGCGAGTTACCAAA
1 CCGGGTTAAGTCCCGAAGGCA-TTTGTGCGAGTTACAAAA
* *
34702528 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AAAA
* * *
34702568 CCGGGTAAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
34702598 ATCACTATAA
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
39 22 0.24
40 58 0.63
41 12 0.13
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
Found at i:34702582 original size:80 final size:79
Alignment explanation
Indices: 34702448--34702625 Score: 191
Period size: 80 Copynumber: 2.2 Consensus size: 79
34702438 CGAATGGTAT
* * * *
34702448 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAATCGGGTTAGTCCCGAAGGCATTTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAATCGGGTAAGTCCCGAAGGCA-ATT
34702513 GTGCGAGTTACCAAA
65 GTGCGAGTTACCAAA
* * * *
34702528 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACT-AAATCCGGGTAAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAAT-CGGGT-AAGTCCCGAAGGCAAT
* * *
34702591 TGTGCGAATCACTATAA
64 TGTGCGAGTTACCA-AA
34702608 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
34702626 ACAATCGAGC
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 4 0.05
79 25 0.30
80 53 0.65
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAATCGGGTAAGTCCCGAAGGCAATTG
TGCGAGTTACCAAA
Found at i:34702612 original size:40 final size:39
Alignment explanation
Indices: 34702498--34702665 Score: 126
Period size: 40 Copynumber: 4.2 Consensus size: 39
34702488 ATCGGGTTAG
* * * * *
34702498 TCCCGAAGGCATTTTGTGCGAGTTACCAAACCGGGTTAAG
1 TCCCGAAGGCA-ATTGTGCGAGTCACTAAACCGGGTAAAT
*
34702538 TCCCGAAGGC-ATTCGTGCGAGTTACTAAATCCGGGTAAAT
1 TCCCGAAGGCAATT-GTGCGAGTCACTAAA-CCGGGTAAAT
* *
34702578 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAAT
1 TCCCGAAGGCAATTGTGCGAGTCACTA-AACCGGGTAAAT
* * * * * * *
34702617 GTCCCGAAGACAATCGAGCTAGTCGCTATATCCGGTTAAAT
1 -TCCCGAAGGCAATTGTGCGAGTCACTA-AACCGGGTAAAT
34702658 T-CCGAAGG
1 TCCCGAAGG
34702666 TACGTGATTC
Statistics
Matches: 105, Mismatches: 17, Indels: 13
0.78 0.13 0.10
Matches are distributed among these distances:
38 2 0.02
39 23 0.22
40 72 0.69
41 8 0.08
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (39 bp):
TCCCGAAGGCAATTGTGCGAGTCACTAAACCGGGTAAAT
Found at i:34705215 original size:43 final size:42
Alignment explanation
Indices: 34705152--34705322 Score: 184
Period size: 43 Copynumber: 4.0 Consensus size: 42
34705142 CATAGGATTT
*
34705152 TCGATATGTGTATTCATGTAAGACCAGGTCTGGGACGTTGGCA
1 TCGATATGTG-ATTCATGTAAGACCATGTCTGGGACGTTGGCA
* * * * *
34705195 TTGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGCCA
1 TCGATATGTGATT-CATGTAAGACCATGTCTGGGACGTTGGCA
* * *
34705238 TCG-TATTTGATTCGTGTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATGTGATTCATGTAAGACCATGTCTGGGAC-GTTGGCA
* * *
34705279 TCGAGATATGATTACATGTAAGACCATGTTTGGGACGTTGGCA
1 TCGATATGTGATT-CATGTAAGACCATGTCTGGGACGTTGGCA
34705322 T
1 T
34705323 TGTACGATAT
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
41 27 0.25
42 19 0.18
43 60 0.57
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
TCGATATGTGATTCATGTAAGACCATGTCTGGGACGTTGGCA
Found at i:34707975 original size:27 final size:27
Alignment explanation
Indices: 34707964--34708147 Score: 296
Period size: 27 Copynumber: 6.8 Consensus size: 27
34707954 ATTACCAAAG
34707964 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
34707991 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
34708018 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
34708045 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
34708072 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
34708099 TACCATCGATTTACAGAATTACAATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
34708126 TACCTTCGATTTAAAAAATTAC
1 TACCCTCGATTTACAGAATTAC
34708148 TCAAATAACC
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:34708291 original size:27 final size:27
Alignment explanation
Indices: 34708142--34708302 Score: 189
Period size: 27 Copynumber: 6.0 Consensus size: 27
34708132 CGATTTAAAA
* * *
34708142 AATTACTCAAATAACCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
34708169 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
34708196 AATTACCGAAATACACCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
34708223 AATTACTGAAATAACCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
34708250 AATTACCAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
34708277 AACTACTGATTTACCCCTAG-AGGGTA
1 AATTACTGAAATACCCCT-GTAGGGTA
34708303 AAATGACTAT
Statistics
Matches: 113, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 112 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:34709089 original size:27 final size:26
Alignment explanation
Indices: 34709037--34709096 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
34709027 ATATATATAT
*
34709037 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
34709063 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
34709090 ATATCTG
1 ATATCTG
34709097 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:34711711 original size:43 final size:43
Alignment explanation
Indices: 34711645--34711799 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
34711635 TCATACAATA
* * *
34711645 CCAACATCCCAGAC-GTAGTCTTACATGTAATCAAATATCAATG
1 CCAATATCCCAGACAG-GGTCTTACATGTAATCAAATATCGATG
* *
34711688 CCACTATCCCAGACAGGGTCTTACATGAAATCAAATA-CGATG
1 CCAATATCCCAGACAGGGTCTTACATGTAATCAAATATCGATG
* * * *
34711730 TCAATGTCCCAGACATGGTCTTACAAGTAAATCATAA-ATCGATG
1 CCAATATCCCAGACAGGGTCTTACATGT-AATCA-AATATCGATG
*
34711774 CCAA-AGTCCCAGA-TGTGGTCTTACAT
1 CCAATA-TCCCAGACAG-GGTCTTACAT
34711800 AAGAACTCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 26 0.29
43 37 0.41
44 27 0.30
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
CCAATATCCCAGACAGGGTCTTACATGTAATCAAATATCGATG
Found at i:34711786 original size:44 final size:43
Alignment explanation
Indices: 34711651--34711799 Score: 144
Period size: 42 Copynumber: 3.5 Consensus size: 43
34711641 AATACCAACA
* * * *
34711651 TCCCAGACGTAGTCTTACATGT-AATCAAATATCAATGCCACTA-
1 TCCCAGACATGGTCTTACATGTAAATCAAA-ATCGATGCCA-AAG
* * *
34711694 TCCCAGACAGGGTCTTACATG-AAATC-AAATACGATGTCAATG
1 TCCCAGACATGGTCTTACATGTAAATCAAAAT-CGATGCCAAAG
*
34711736 TCCCAGACATGGTCTTACAAGTAAATCATAAATCGATGCCAAAG
1 TCCCAGACATGGTCTTACATGTAAATCA-AAATCGATGCCAAAG
**
34711780 TCCCAGATGTGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
34711800 AAGAACTCAT
Statistics
Matches: 86, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 27 0.31
43 27 0.31
44 26 0.30
45 4 0.05
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAAATCAAAATCGATGCCAAAG
Found at i:34712756 original size:30 final size:29
Alignment explanation
Indices: 34712722--34712778 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
34712712 AGGTGGAATG
34712722 GGAAGGAAATAAAAATTTTAGGGGGAAAGT
1 GGAAGGAAATAAAAATTTT-GGGGGAAAGT
* * *
34712752 GGAAGGGAGTAACAATTTTGGGGGAAA
1 GGAAGGAAATAAAAATTTTGGGGGAAA
34712779 ATAAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.19
Consensus pattern (29 bp):
GGAAGGAAATAAAAATTTTGGGGGAAAGT
Found at i:34712922 original size:29 final size:31
Alignment explanation
Indices: 34712889--34712950 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 31
34712879 GGATGGAAGG
*
34712889 GGAGTAAAAGTTTTG-GG-AGAAAGTAAGAA
1 GGAGTAAAAGTTTTGAGGTAAAAAGTAAGAA
34712918 GGAGTAAAAGTTTTGAGGTAAAAAGTAAGAA
1 GGAGTAAAAGTTTTGAGGTAAAAAGTAAGAA
34712949 GG
1 GG
34712951 TTTGGAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 15 0.50
30 2 0.07
31 13 0.43
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (31 bp):
GGAGTAAAAGTTTTGAGGTAAAAAGTAAGAA
Found at i:34713010 original size:9 final size:9
Alignment explanation
Indices: 34712996--34713028 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
34712986 GTTTGATATC
34712996 CGAATTATT
1 CGAATTATT
34713005 CGAATTATT
1 CGAATTATT
34713014 C-AAGTTATT
1 CGAA-TTATT
34713023 CGAATT
1 CGAATT
34713029 CAAAAACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (9 bp):
CGAATTATT
Found at i:34719767 original size:23 final size:23
Alignment explanation
Indices: 34719740--34719805 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
34719730 ACGTTTACCG
* *
34719740 CTATTAGTAGCTTTGCTGCGTTA
1 CTATTAGCAGCTTTGCTGCATTA
*
34719763 CTATTAGCAGCTTTGCTACATTA
1 CTATTAGCAGCTTTGCTGCATTA
*
34719786 CTATTAGCAGCTATGCTGCA
1 CTATTAGCAGCTTTGCTGCA
34719806 ATATTGGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTGCATTA
Found at i:34719986 original size:33 final size:34
Alignment explanation
Indices: 34719938--34720009 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
34719928 ATAGGCCCAC
* * *
34719938 ACTGTTACTGCATAGGACTTAGGCCAAGACTG-T
1 ACTGTTAATGAATAGGACTTAGGCCAAGACCGTT
* *
34719971 ACTGTTAATGAATAGGGCTTAGGCCCAGACCGTT
1 ACTGTTAATGAATAGGACTTAGGCCAAGACCGTT
34720005 ACTGT
1 ACTGT
34720010 ATGCGCTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGTTAATGAATAGGACTTAGGCCAAGACCGTT
Found at i:34722924 original size:43 final size:43
Alignment explanation
Indices: 34722877--34722993 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
34722867 TAACAAACGT
* *
34722877 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAG
1 GGTCTTACATGTAATCAAATATCGATGCCAATGCCCCAAACAG
* * * *
34722920 GGTCTTACATGAAATCAAATA-CAATGCCAATGCCCCAGACAT
1 GGTCTTACATGTAATCAAATATCGATGCCAATGCCCCAAACAG
* *
34722962 GGTCTTACACGTAAATCATAA-GTCGATGCCAA
1 GGTCTTACATGT-AATCA-AATATCGATGCCAA
34722994 CATCTTAGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 26 0.43
43 25 0.41
44 10 0.16
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCAATGCCCCAAACAG
Found at i:34722966 original size:42 final size:43
Alignment explanation
Indices: 34722856--34722979 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
34722846 AAAGCTCGTA
*** * *
34722856 CAATGCCAATGTAACAAACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGCCCCAAACATGGTCTTACATGAAATCAAATAT
* * * *
34722899 CGATGCCACTGTCCCAAACAGGGTCTTACATGAAATCAAATA-
1 CAATGCCAATGCCCCAAACATGGTCTTACATGAAATCAAATAT
* *
34722941 CAATGCCAATGCCCCAGACATGGTCTTACACGTAAATCA
1 CAATGCCAATGCCCCAAACATGGTCTTACATG-AAATCA
34722980 TAAGTCGATG
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 26 0.39
43 41 0.61
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (43 bp):
CAATGCCAATGCCCCAAACATGGTCTTACATGAAATCAAATAT
Found at i:34725428 original size:40 final size:40
Alignment explanation
Indices: 34725370--34725537 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
34725360 CAATTGAATG
* *
34725370 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
34725411 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
34725450 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
34725490 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
34725530 ATATCCGG
1 ATATCCGG
34725538 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:34725508 original size:80 final size:79
Alignment explanation
Indices: 34725370--34725537 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
34725360 CAATTGAATG
* * *
34725370 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
34725435 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
34725450 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
34725514 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
34725530 ATATCCGG
1 ATATCCGG
34725538 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:34733441 original size:40 final size:40
Alignment explanation
Indices: 34733383--34733550 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
34733373 CAATTGAATG
* *
34733383 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
34733424 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
34733463 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
34733503 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
34733543 ATATCCGG
1 ATATCCGG
34733551 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:34733521 original size:80 final size:79
Alignment explanation
Indices: 34733383--34733550 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
34733373 CAATTGAATG
* * *
34733383 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
34733448 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
34733463 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
34733527 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
34733543 ATATCCGG
1 ATATCCGG
34733551 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:34735278 original size:24 final size:24
Alignment explanation
Indices: 34735251--34735298 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34735241 ATTCGGATGG
* * *
34735251 ATTAAATCTAACACTTGTGAATTC
1 ATTAAATCGAACACTAGCGAATTC
34735275 ATTAAATCGAACACTAGCGAATTC
1 ATTAAATCGAACACTAGCGAATTC
34735299 CTCTCAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (24 bp):
ATTAAATCGAACACTAGCGAATTC
Found at i:34748635 original size:27 final size:27
Alignment explanation
Indices: 34748601--34748800 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
34748591 TGGATAAGTT
* *
34748601 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
34748628 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
34748655 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
34748682 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
34748709 ATAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
34748736 GAAGAAATACCGAAATACCCCTGTACG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
34748763 GTAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
34748790 GTAAAATTACC
1 GTAGAATTACC
34748801 ATTTTGTCCC
Statistics
Matches: 147, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:34750897 original size:71 final size:72
Alignment explanation
Indices: 34750815--34750976 Score: 238
Period size: 71 Copynumber: 2.3 Consensus size: 72
34750805 CATCATGTGT
* * * **
34750815 ACAAGAAAGCTACGAGACACCCTGTA-GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
34750879 CATGTAG
66 CATGTAG
* * *
34750886 ACAAGAGAGCTACGTGA-AAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
34750950 CATGTAG
66 CATGTAG
34750957 ACAAGAGAGCTACGAGACAA
1 ACAAGAGAGCTACGAGACAA
34750977 ATCGGTTGGG
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
70 3 0.04
71 75 0.94
72 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (72 bp):
ACAAGAGAGCTACGAGACAACATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACAC
CATGTAG
Found at i:34758467 original size:71 final size:73
Alignment explanation
Indices: 34758352--34758509 Score: 252
Period size: 71 Copynumber: 2.2 Consensus size: 73
34758342 ACACCCTGTA
* * *
34758352 GTAGCTAGGTCACATGTGGTGATACGAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAA
1 GTAGCTAGGTCGCATGTCGTGATACCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAA
34758417 GATAAAT-
66 GATAAATC
*
34758424 GTAGCTAGGTCGCATG-CGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAA
1 GTAGCTAGGTCGCATGTCGTGATACCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAA
34758488 GATAAATC
66 GATAAATC
34758496 G--GCTAGGTCGCATG
1 GTAGCTAGGTCGCATG
34758510 AGTGGTATTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
70 13 0.16
71 52 0.64
72 16 0.20
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (73 bp):
GTAGCTAGGTCGCATGTCGTGATACCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAA
GATAAATC
Done.